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<h1 class="ltx_title ltx_title_section">About ThunderSTORM</h1>

<div id="Sx1.p1" class="ltx_para">
<p class="ltx_p">ThunderSTORM is an open-source, interactive, and modular plug-in for
ImageJ designed for automated processing, analysis, and visualization
of data acquired by single molecule localization microscopy methods
such as PALM and STORM. ThunderSTORM offers an extensive collection
of processing and post-processing methods so that users can easily
adapt the process of analysis to their data. ThunderSTORM also offers
a set of tools for creation of simulated data and for quantitative
performance evaluation of localization algorithms using Monte-Carlo
simulations.</p>
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<div id="Sx1.SS0.SSSx1" class="ltx_subsubsection">
<h2 class="ltx_title ltx_title_subsubsection">Authors and affiliation</h2>

<div id="Sx1.SS0.SSSx1.p1" class="ltx_para">
<p class="ltx_p">Martin Ovesný, Pavel Křížek, Josef Borkovec, Zdeněk
Švindrych, and Guy M. Hagen.</p>
</div>
<div id="Sx1.SS0.SSSx1.p2" class="ltx_para">
<p class="ltx_p">Institute of Cellular Biology and Pathology, First Faculty
of Medicine, Charles University in Prague, Czech Republic.</p>
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<div id="Sx1.SS0.SSSx2" class="ltx_subsubsection">
<h2 class="ltx_title ltx_title_subsubsection">How to cite ThunderSTORM</h2>

<div id="Sx1.SS0.SSSx2.p1" class="ltx_para">
<p class="ltx_p">If you use ThunderSTORM to process your data, please, cite our <a href="http://dx.doi.org/10.1093/bioinformatics/btu202" title="" class="ltx_ref">paper</a>:
M. Ovesný, P. Křížek, J. Borkovec, Z. Švindrych, G. M. Hagen.
<em class="ltx_emph">ThunderSTORM: a comprehensive ImageJ plugin for PALM and STORM
data analysis and super-resolution imaging.</em> Bioinformatics 30(16):2389-2390,
2014.</p>
</div>
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<div id="Sx1.SS0.SSSx3" class="ltx_subsubsection">
<h2 class="ltx_title ltx_title_subsubsection">Project site</h2>

<div id="Sx1.SS0.SSSx3.p1" class="ltx_para">
<p class="ltx_p">The latest version of ThunderSTORM, including source code and documentation,
is available at <a href="https://code.google.com/p/thunder-storm/" title="" class="ltx_ref">https://code.google.com/p/thunder-storm/</a>.</p>
</div>
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<div id="Sx1.SS0.SSSx4" class="ltx_subsubsection">
<h2 class="ltx_title ltx_title_subsubsection">License</h2>

<div id="Sx1.SS0.SSSx4.p1" class="ltx_para">
<p class="ltx_p">ThunderSTORM is licensed under the terms of <a href="http://www.gnu.org/licenses/gpl.html" title="" class="ltx_ref">GNU GPLv3</a>
licence.</p>
</div>
</div>
<div id="Sx1.SS0.SSSx5" class="ltx_subsubsection">
<h2 class="ltx_title ltx_title_subsubsection">Report a bug</h2>

<div id="Sx1.SS0.SSSx5.p1" class="ltx_para">
<p class="ltx_p">Prior to submitting a bug report, please upgrade to the latest version
of ThunderSTORM and see if the error still occurs.</p>
</div>
<div id="Sx1.SS0.SSSx5.p2" class="ltx_para">
<p class="ltx_p">If you receive an exception that ImageJ ran out of memory, try to
increase the memory limit or to load the SMLM data as a virtual stack.</p>
</div>
<div id="Sx1.SS0.SSSx5.p3" class="ltx_para">
<p class="ltx_p">In the case of a malfunction, please let us know by using the <a href="https://code.google.com/p/thunder-storm/issues/list" title="" class="ltx_ref">Google Code issue tracking system</a>.
Specify the malfunction, and describe the procedure to reproduce the
error. If an exception occurs, copy the stacktrace into the description
box and specify your platform, i.e., your version of Java, ImageJ,
ThunderSTORM, and operating system.</p>
</div>
</div>
<div id="Sx1.SS0.SSSx6" class="ltx_subsubsection">
<h2 class="ltx_title ltx_title_subsubsection">Redistributed third-party libraries</h2>

<div id="Sx1.SS0.SSSx6.p1" class="ltx_para">
<p class="ltx_p">The binary release includes these dependencies:</p>
<ul id="I1" class="ltx_itemize">
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<span class="ltx_tag ltx_tag_itemize">•</span> 
<div id="I1.i1.p1" class="ltx_para">
<p class="ltx_p"><a href="http://www.antlr3.org/" title="" class="ltx_ref">ANTLR runtime </a>, <a href="http://www.antlr3.org/license.html" title="" class="ltx_ref">BSD</a>
license</p>
</div>
</li>
<li id="I1.i2" class="ltx_item" style="list-style-type:none;">
<span class="ltx_tag ltx_tag_itemize">•</span> 
<div id="I1.i2.p1" class="ltx_para">
<p class="ltx_p"><a href="https://balloontip.java.net/" title="" class="ltx_ref">Balloon tip</a>, <a href="http://opensource.org/licenses/BSD-3-Clause" title="" class="ltx_ref">BSD New</a>
license</p>
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<span class="ltx_tag ltx_tag_itemize">•</span> 
<div id="I1.i3.p1" class="ltx_para">
<p class="ltx_p"><a href="http://commons.apache.org/proper/commons-io/" title="" class="ltx_ref">Commons IO</a>,
<a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a></p>
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<p class="ltx_p"><a href="http://commons.apache.org/proper/commons-lang/" title="" class="ltx_ref">Commons lang</a>
, <a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a></p>
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<p class="ltx_p"><a href="http://commons.apache.org/proper/commons-math/" title="" class="ltx_ref">Commons Math</a>,
<a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a></p>
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<p class="ltx_p"><a href="http://commons.apache.org/proper/commons-primitives/" title="" class="ltx_ref">Commons Primitives</a>,
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<p class="ltx_p"><a href="http://cssbox.sourceforge.net/" title="" class="ltx_ref">CSSBox + SwingBox + jStyleParser</a>,
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<p class="ltx_p"><a href="https://code.google.com/p/google-gson/" title="" class="ltx_ref">Gson</a>, <a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a></p>
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<p class="ltx_p"><a href="http://rsb.info.nih.gov/ij/" title="" class="ltx_ref">ImageJ</a>, Public domain</p>
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<p class="ltx_p"><a href="http://bitbucket.org/pepa_borkovec/macroawareui" title="" class="ltx_ref">MacroAwareUI</a>,
<a href="http://www.gnu.org/licenses/gpl.html" title="" class="ltx_ref">GPLv3</a> licence
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<p class="ltx_p"><a href="http://opencsv.sourceforge.net/" title="" class="ltx_ref">OpenCSV</a>, <a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a></p>
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<p class="ltx_p"><a href="https://code.google.com/p/protobuf/" title="" class="ltx_ref">Protocol Buffers</a>, <a href="http://opensource.org/licenses/BSD-3-Clause" title="" class="ltx_ref">BSD New</a></p>
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<p class="ltx_p">Question mark icon by <a href="http://p.yusukekamiyamane.com/" title="" class="ltx_ref">Yusuke Kamiyamane</a>,
<a href="http://creativecommons.org/licenses/by/3.0/" title="" class="ltx_ref">Creative commons attribution 3.0</a>
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<p class="ltx_p"><a href="http://www.slf4j.org/" title="" class="ltx_ref">SLF4J api</a>, <a href="http://www.slf4j.org/license.html" title="" class="ltx_ref">MIT</a>
license</p>
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<p class="ltx_p"><a href="https://code.google.com/p/snakeyaml/" title="" class="ltx_ref">Snakeyaml</a>, <a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a></p>
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<p class="ltx_p"><a href="http://xerces.apache.org/" title="" class="ltx_ref">Xerces</a>, <a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a></p>
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<p class="ltx_p"><a href="http://xerces.apache.org/xml-commons/" title="" class="ltx_ref">XML Commons</a>, <a href="http://www.apache.org/licenses/LICENSE-2.0" title="" class="ltx_ref">Apache License 2.0</a>
+ <a href="http://www.w3.org/Consortium/Legal/2002/copyright-software-20021231" title="" class="ltx_ref">W3C</a></p>
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